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WO2003060765A1 - Methode de construction de la stereostructure d'une proteine a plusieurs chaines - Google Patents

Methode de construction de la stereostructure d'une proteine a plusieurs chaines Download PDF

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Publication number
WO2003060765A1
WO2003060765A1 PCT/JP2003/000057 JP0300057W WO03060765A1 WO 2003060765 A1 WO2003060765 A1 WO 2003060765A1 JP 0300057 W JP0300057 W JP 0300057W WO 03060765 A1 WO03060765 A1 WO 03060765A1
Authority
WO
WIPO (PCT)
Prior art keywords
stereostructure
constructing
chains
plural number
protein
Prior art date
Application number
PCT/JP2003/000057
Other languages
English (en)
Japanese (ja)
Inventor
Hideaki Umeyama
Mitsuo Iwadate
Eiichiro Suzuki
Original Assignee
Hideaki Umeyama
Ajinomoto Kk
Mitsuo Iwadate
Eiichiro Suzuki
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Hideaki Umeyama, Ajinomoto Kk, Mitsuo Iwadate, Eiichiro Suzuki filed Critical Hideaki Umeyama
Priority to JP2003560791A priority Critical patent/JP4309282B2/ja
Priority to AT03700474T priority patent/ATE534958T1/de
Priority to AU2003201908A priority patent/AU2003201908A1/en
Priority to EP03700474A priority patent/EP1471443B1/fr
Publication of WO2003060765A1 publication Critical patent/WO2003060765A1/fr
Priority to US10/887,104 priority patent/US20050192757A1/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K1/00—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length
    • C07K1/107—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length by chemical modification of precursor peptides
    • C07K1/113—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length by chemical modification of precursor peptides without change of the primary structure
    • C07K1/1136—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length by chemical modification of precursor peptides without change of the primary structure by reversible modification of the secondary, tertiary or quarternary structure, e.g. using denaturating or stabilising agents
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K1/00—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00—ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B15/00—ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
    • G16B15/20—Protein or domain folding
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2299/00—Coordinates from 3D structures of peptides, e.g. proteins or enzymes
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biophysics (AREA)
  • General Health & Medical Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • Medical Informatics (AREA)
  • Theoretical Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Organic Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Medicinal Chemistry (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • General Chemical & Material Sciences (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)
  • Peptides Or Proteins (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)

Abstract

Cette invention concerne une méthode permettant de construire la stéréostructure d'une protéine à plusieurs chaînes qui présente des séquences arbitraires d'amino-acides en appliquant par extension un procédé expérimental de modélisation utilisé pour la construction de la stéréostructure d'une protéine à chaîne unique avec séquence d'aminoacides arbitraire (extension du procédé de modélisation). Selon cette méthode, les formes d'entrée de la chaîne dans un programme informatique sont corrigées chacune de manière à présenter une morphologie de chaîne unique factice (correction de l'alignement séquentiel), puis on construit la stéréostructure selon le procédé de modélisation tout en supposant, dans le calcul de la formule potentielle par le programme informatique, que la structure possède plusieurs chaînes, ce qui permet d'élaborer la structure de la protéine cible. Plus spécifiquement, cette méthode de construction de la stéréostructure d'une protéine arbitraire à plusieurs chaînes intervient de façon essentielle dans la conception de médicaments ou analogues, ceci avec une précision élevée et une efficacité beaucoup plus grande qu'avec des méthodes classiques.
PCT/JP2003/000057 2002-01-09 2003-01-08 Methode de construction de la stereostructure d'une proteine a plusieurs chaines WO2003060765A1 (fr)

Priority Applications (5)

Application Number Priority Date Filing Date Title
JP2003560791A JP4309282B2 (ja) 2002-01-09 2003-01-08 複数鎖を有するタンパク質の立体構造構築方法
AT03700474T ATE534958T1 (de) 2002-01-09 2003-01-08 Verfahren zum konstruieren der stereostruktur eines proteins mit mehreren ketten
AU2003201908A AU2003201908A1 (en) 2002-01-09 2003-01-08 Method of constructing stereostructure of protein having plural number of chains
EP03700474A EP1471443B1 (fr) 2002-01-09 2003-01-08 Methode de construction de la stereostructure d'une proteine a plusieurs chaines
US10/887,104 US20050192757A1 (en) 2002-01-09 2004-07-09 Method of constructing teritiary structure of protein composed of plural chains

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
JP2002002859 2002-01-09
JP2002-2859 2002-01-09

Related Child Applications (1)

Application Number Title Priority Date Filing Date
US10/887,104 Continuation US20050192757A1 (en) 2002-01-09 2004-07-09 Method of constructing teritiary structure of protein composed of plural chains

Publications (1)

Publication Number Publication Date
WO2003060765A1 true WO2003060765A1 (fr) 2003-07-24

Family

ID=19190797

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/JP2003/000057 WO2003060765A1 (fr) 2002-01-09 2003-01-08 Methode de construction de la stereostructure d'une proteine a plusieurs chaines

Country Status (5)

Country Link
EP (1) EP1471443B1 (fr)
JP (1) JP4309282B2 (fr)
AT (1) ATE534958T1 (fr)
AU (1) AU2003201908A1 (fr)
WO (1) WO2003060765A1 (fr)

Cited By (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2006189984A (ja) * 2004-12-28 2006-07-20 Advance Soft Kk タンパク質の全電子波動関数計算におけるタンパク質立体構造データの前処理法
CN109686409A (zh) * 2019-02-01 2019-04-26 华南理工大学 一种耗散粒子动力学研究包含可断裂化学键载药胶束的药物释放过程的模拟方法
CN114171112A (zh) * 2021-11-02 2022-03-11 华东师范大学 一种利用分子杂交技术进行基于蛋白结构的药物设计方法
CN116052758A (zh) * 2023-01-19 2023-05-02 百图生科(北京)智能技术有限公司 一种蛋白质复合物结构预测方法、装置、设备及存储介质
WO2023139933A1 (fr) * 2022-01-21 2023-07-27 ソニーグループ株式会社 Dispositif de traitement d'informations, procédé de traitement d'informations, et programme
CN117059158A (zh) * 2023-07-10 2023-11-14 国开启科量子技术(安徽)有限公司 用于提取蛋白属性特征的方法、装置、设备及介质

Families Citing this family (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102799795B (zh) * 2011-05-25 2016-08-17 中国医学科学院药用植物研究所 物种移动鉴别系统、终端、服务器及方法
CN115497553B (zh) * 2022-09-29 2023-07-14 水木未来(杭州)科技有限公司 蛋白质三维结构建模方法及装置、电子设备和存储介质

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5884230A (en) 1993-04-28 1999-03-16 Immunex Corporation Method and system for protein modeling
WO1999018440A1 (fr) * 1997-10-02 1999-04-15 Akiko Itai Procede relatif a l'inference d'une structure de proteine tridimensionnelle
WO2001035316A2 (fr) 1999-11-10 2001-05-17 Structural Bioinformatics, Inc. Utilisation de structures proteiques, derivees par calcul, de polymorphismes genetiques aux fins d'applications pharmacogenomiques et cliniques

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5884230A (en) 1993-04-28 1999-03-16 Immunex Corporation Method and system for protein modeling
WO1999018440A1 (fr) * 1997-10-02 1999-04-15 Akiko Itai Procede relatif a l'inference d'une structure de proteine tridimensionnelle
WO2001035316A2 (fr) 1999-11-10 2001-05-17 Structural Bioinformatics, Inc. Utilisation de structures proteiques, derivees par calcul, de polymorphismes genetiques aux fins d'applications pharmacogenomiques et cliniques

Non-Patent Citations (6)

* Cited by examiner, † Cited by third party
Title
GERARDO JIMENEZ-SANCHEZ, NATURE, vol. 409, 2001, pages 853 - 855
KAWABATA T ET AL.: "NUCLEIC ACIDS RESEARCH", vol. 30, OXFORD UNIVERSITY PRESS, pages: 294 - 298
KIHARA D ET AL., PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE, vol. 98, pages 10125 - 10130
KOLINSKI A ET AL.: "PROTEINS: STRUCTURE, FUNCTION AND GENETICS", vol. 44, JOHN WILEY & SONS, INC, pages: 133 - 149
UMEYAMA ET AL.: "Genome ikagaku to kiso kara no bioinformatics hito genome database, homology kensaku, SNP, proteome kaiseki kara shikkan kaiseki soyaku eno oyo made dai 5 sho informatics to soyaku 4. Tanpakushitsu rittai kozo no jido modeling", EXPERIMENTAL MEDICINE, vol. 19, no. 11, 5 July 2001 (2001-07-05), pages 1470 - 1474, XP002963796 *
YONEDA T; KOMOOKA H; UMEYAMA H, JOURNAL OF PROTEIN CHEMISTRY, vol. 16, 1997, pages 597 - 605

Cited By (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2006189984A (ja) * 2004-12-28 2006-07-20 Advance Soft Kk タンパク質の全電子波動関数計算におけるタンパク質立体構造データの前処理法
CN109686409A (zh) * 2019-02-01 2019-04-26 华南理工大学 一种耗散粒子动力学研究包含可断裂化学键载药胶束的药物释放过程的模拟方法
CN109686409B (zh) * 2019-02-01 2020-08-18 华南理工大学 包含可断裂化学键载药胶束的药物释放过程的模拟方法
CN114171112A (zh) * 2021-11-02 2022-03-11 华东师范大学 一种利用分子杂交技术进行基于蛋白结构的药物设计方法
WO2023139933A1 (fr) * 2022-01-21 2023-07-27 ソニーグループ株式会社 Dispositif de traitement d'informations, procédé de traitement d'informations, et programme
CN116052758A (zh) * 2023-01-19 2023-05-02 百图生科(北京)智能技术有限公司 一种蛋白质复合物结构预测方法、装置、设备及存储介质
CN117059158A (zh) * 2023-07-10 2023-11-14 国开启科量子技术(安徽)有限公司 用于提取蛋白属性特征的方法、装置、设备及介质

Also Published As

Publication number Publication date
ATE534958T1 (de) 2011-12-15
EP1471443A8 (fr) 2005-01-26
EP1471443A1 (fr) 2004-10-27
JPWO2003060765A1 (ja) 2005-05-19
AU2003201908A1 (en) 2003-07-30
EP1471443B1 (fr) 2011-11-23
JP4309282B2 (ja) 2009-08-05
EP1471443A4 (fr) 2005-10-05

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